Status
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Gene information
General information
TC012506 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NC_007424.3: 9548855..9552282
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
    		TC012506
    Gene ontology

    GO terms for Tribolium

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    There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


    GO terms for the homologous Drosophila genes

    Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


    Gene
    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
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    The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
    Evidence
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    The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
    Reference *
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    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07640

    Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

    iB sequence
    Phenotype after pupal injection
    Usually 10 injected animals

    Pupal injection procedure

    Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

    3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

    9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

    11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

    Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

    13 dpi: Egg productivity and Ovary analysis
    The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

    14 dpi: Analysis of embryonic musculature and early embryonic development
    Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

    15 dpi: Analysis of larval instar 1 cuticle
    Offspring of injected females were analysed and cuticle phenotypes were annotated.

    22 dpi: Stink gland analysis
    Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

    Terms used in the pupal injection procedure

    larval pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    empty eggs
    Just empty shells are visible, no cuticle has been developed.
    strong defects
    L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
    strongly fragmented (cuticle crumbs)
    No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
    cuticle remnants (with unidentifiable segments)
    Segments or parts of appendages are recognizable, but identity is not clear.
    cuticle remnants (with some identifiable segments)
    At least one segment or appendage is clearly regonizable.
    number of eggs on slide
    affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
    For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
    total number of affected eggs/embryos/larvae
    Summary of all different phenotypes/ phenotypic series which were annotated.
    inside-out
    The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    Please see the help page for more information
    Metamorphosis and survival

    Lethality 11 days after pupal injection: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    Phenotype after larval injection
    Usually 10 injected animals

    Larval injection procedure

    Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

    11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

    16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

    19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

    22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

    41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

    Terms used in the larval injection procedure

    pupal/ adult pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    pupal molt not fulfilled
    The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    Metamorphosis and survival

    Lethalities 11 days after larval injection: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012506 RA
      MAGPGYVLG VDIGTTSVK VCVFNPENN EIVAQIGKE 
TQSNVPSDQ GIDGNKQDV PKIISALNT CVAKLQKNL 
LQQITKIGI CGQMHGVMF WNQDKSWER VEKDNNLVR 
FDVVQDQVS ALYTWQDSR CDPSFLSSL PVPQSHLKV 
YTGFGNATI FWMAKNKPE KLKRYNRCG TIQDFAVAM 
LCNLSRPIM SDQNAASWG YFDCVHHRW NEEILKQAG 
FPISLLPEI KTSGEIAGY LADNWHSIP KGTPIGIAL 
ADLQCSVLS TIETNKDAV LNISTSAQI AFVAEDYKP 
STGPPSVST VEYVPYFKN KYLAVAASL NGGNSLATF 
VKMVQQWTM TLGFSVPQS KVWEKVISL GLEENSVSD 
LKISPTCLG ERHAPNVTA SVTNINIGN LELGKVFRA 
LCNGLLVNL HSMMPRDIL QNAKITRIV GNGSGLSRN 
KVLQNEVLN LYKLPLVFT TGGDAAKGA AMAMNLDTV 
NFK
    CDS sequence
    • >TC012506 RA
      atggccggc ccggggtac gtcctaggc gtcgacatc 
ggcaccact tcggtcaaa gtgtgcgtt ttcaacccc 
gaaaacaac gaaatcgtc gctcaaatc ggcaaggag 
acacaatcg aacgtcccc agtgaccaa ggcatcgac 
ggaaacaaa caagacgtc ccgaaaatc atttccgcc 
ctcaacacg tgcgtggcc aaattacag aaaaatctg 
ctgcagcag ataaccaaa atcgggata tgtgggcaa 
atgcacgga gtcatgttc tggaaccag gataaatcc 
tgggaacgg gtagagaaa gacaacaac ttagtgcgc 
ttcgacgtt gtccaagat caagtgtca gctctctac 
acttggcag gacagccgt tgtgaccct tccttcctg 
tcatcccta cccgtcccc caatctcac ttgaaggtc 
tacactggt ttcggcaac gccacaatc ttctggatg 
gccaaaaat aaacctgaa aagctaaaa cggtataac 
cgatgcgga actatccag gatttcgcc gttgctatg 
ctttgcaac ttatcccga cctataatg tcggaccag 
aatgcggcg agttgggga tactttgat tgcgtgcat 
caccgctgg aatgaggaa atactgaaa caggcaggt 
ttcccgata tccctcctt ccggaaatc aaaacaagc 
ggagagata gcgggatac ctggcggac aactggcac 
agtattccc aagggaact cccattgga atcgccctt 
gcagacttg caatgttca gttttatcc accattgag 
acaaataag gatgcagtt ttaaacata tcgacttcg 
gcacaaatc gccttcgtc gccgaagac tacaaacca 
agtacagga cctccgtct gtatcaacc gtagagtac 
gtcccttac ttcaaaaac aagtatctg gctgttgcc 
gcgtcccta aatgggggc aactccttg gcgactttt 
gtcaaaatg gtccaacag tggactatg actttgggg 
ttctcggtg ccacaatct aaggtttgg gagaaagtc 
attagtttg ggtttggag gagaacagt gtttcagac 
ttgaaaatt tcccccact tgtcttggt gaaagacac 
gcccctaat gtcaccgcc tctgtcact aacattaat 
atcgggaat ctcgaattg ggaaaagtc tttcgagct 
ttatgcaat ggcctactt gttaatttg catagtatg 
atgcctagg gatattctc caaaatgcg aagataaca 
aggattgtt gggaatggg tcaggtctg tccaggaac 
aaagtcttg caaaacgaa gtgttgaat ctttacaag 
ttgcctttg gtctttact acggggggt gatgcggct 
aaaggggcc gccatggcc atgaattta gataccgta 
aattttaag taa
    mRNA sequence
    • >TC012506 RA
      tcgtacgtg aacagggtc acgccgaaa atgacgcaa 
gttgtgtcg gcaatcaat agcagtcga ctgccgttt 
tatccagcc gacgaatca aaatctctt cgtgaccat 
ttctccaac gataaaaat aatatttgg cacttagta 
caatagaat aatatggta caattatga atgggcgtt 
tgttttaat aatagtcgt ggggacgcc ggctgaaga 
ctgtgagcg ccatggccg gcccggggt acgtcctag 
gcgtcgaca tcggcacca cttcggtca aagtgtgcg 
ttttcaacc ccgaaaaca acgaaatcg tcgctcaaa 
tcggcaagg agacacaat cgaacgtcc ccagtgacc 
aaggcatcg acggaaaca aacaagacg tcccgaaaa 
tcatttccg ccctcaaca cgtgcgtgg ccaaattac 
agaaaaatc tgctgcagc agataacca aaatcggga 
tatgtgggc aaatgcacg gagtcatgt tctggaacc 
aggataaat cctgggaac gggtagaga aagacaaca 
acttagtgc gcttcgacg ttgtccaag atcaagtgt 
cagctctct acacttggc aggacagcc gttgtgacc 
cttccttcc tgtcatccc tacccgtcc cccaatctc 
acttgaagg tctacactg gtttcggca acgccacaa 
tcttctgga tggccaaaa ataaacctg aaaagctaa 
aacggtata accgatgcg gaactatcc aggatttcg 
ccgttgcta tgctttgca acttatccc gacctataa 
tgtcggacc agaatgcgg cgagttggg gatactttg 
attgcgtgc atcaccgct ggaatgagg aaatactga 
aacaggcag gtttcccga tatccctcc ttccggaaa 
tcaaaacaa gcggagaga tagcgggat acctggcgg 
acaactggc acagtattc ccaagggaa ctcccattg 
gaatcgccc ttgcagact tgcaatgtt cagttttat 
ccaccattg agacaaata aggatgcag ttttaaaca 
tatcgactt cggcacaaa tcgccttcg tcgccgaag 
actacaaac caagtacag gacctccgt ctgtatcaa 
ccgtagagt acgtccctt acttcaaaa acaagtatc 
tggctgttg ccgcgtccc taaatgggg gcaactcct 
tggcgactt ttgtcaaaa tggtccaac agtggacta 
tgactttgg ggttctcgg tgccacaat ctaaggttt 
gggagaaag tcattagtt tgggtttgg aggagaaca 
gtgtttcag acttgaaaa tttccccca cttgtcttg 
gtgaaagac acgccccta atgtcaccg cctctgtca 
ctaacatta atatcggga atctcgaat tgggaaaag 
tctttcgag ctttatgca atggcctac ttgttaatt 
tgcatagta tgatgccta gggatattc tccaaaatg 
cgaagataa caaggattg ttgggaatg ggtcaggtc 
tgtccagga acaaagtct tgcaaaacg aagtgttga 
atctttaca agttgcctt tggtcttta ctacggggg 
gtgatgcgg ctaaagggg ccgccatgg ccatgaatt 
tagataccg taaatttta agtaactag tgtccaaat 
atttatgtc tgatttaaa tttagagtg ataataacg 
agtcccgta caatcgtcc aatagtggc ctattttgt 
tatgaatgt aacacaaat aaagatata tctacact

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY